Sbno2 (strawberry notch homolog 2) - Rat Genome Database

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Gene: Sbno2 (strawberry notch homolog 2) Rattus norvegicus
Analyze
Symbol: Sbno2
Name: strawberry notch homolog 2
RGD ID: 1307194
Description: Predicted to have chromatin DNA binding activity and histone binding activity. Predicted to be involved in several processes, including cellular response to cytokine stimulus; osteoclast fusion; and regulation of transcription, DNA-templated. Predicted to localize to nucleus. Orthologous to human SBNO2 (strawberry notch homolog 2); INTERACTS WITH bisphenol A; C60 fullerene; cadmium dichloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC314619; RGD1307194; similar to KIAA0963 protein; Stno; strawberry notch homolog (Drosophila); strawberry notch homolog 2 (Drosophila)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.279,605,572 - 9,649,529 (+)NCBI
Rnor_6.0 Ensembl712,471,824 - 12,518,654 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0712,471,805 - 12,515,700 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0712,641,918 - 12,685,803 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4711,117,835 - 11,161,863 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1711,117,834 - 11,161,848 (+)NCBI
Celera77,781,528 - 7,825,383 (+)NCBICelera
Cytogenetic Map7q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References

Additional References at PubMed
PMID:18025162   PMID:23980096   PMID:25903009  


Genomics

Comparative Map Data
Sbno2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.279,605,572 - 9,649,529 (+)NCBI
Rnor_6.0 Ensembl712,471,824 - 12,518,654 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0712,471,805 - 12,515,700 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0712,641,918 - 12,685,803 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4711,117,835 - 11,161,863 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1711,117,834 - 11,161,848 (+)NCBI
Celera77,781,528 - 7,825,383 (+)NCBICelera
Cytogenetic Map7q11NCBI
SBNO2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl191,107,637 - 1,174,268 (-)EnsemblGRCh38hg38GRCh38
GRCh38191,107,637 - 1,174,268 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37191,107,637 - 1,174,267 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36191,058,633 - 1,125,282 (-)NCBINCBI36hg18NCBI36
Build 34191,058,657 - 1,125,259NCBI
Celera191,040,607 - 1,110,334 (-)NCBI
Cytogenetic Map19p13.3NCBI
HuRef19881,117 - 952,119 (-)NCBIHuRef
CHM1_1191,107,226 - 1,174,370 (-)NCBICHM1_1
Sbno2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391079,892,826 - 79,941,942 (-)NCBIGRCm39mm39
GRCm39 Ensembl1079,892,826 - 79,941,405 (-)Ensembl
GRCm381080,056,992 - 80,106,108 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1080,056,992 - 80,105,571 (-)EnsemblGRCm38mm10GRCm38
MGSCv371079,519,759 - 79,565,447 (-)NCBIGRCm37mm9NCBIm37
MGSCv361079,460,143 - 79,505,831 (-)NCBImm8
Celera1081,071,823 - 81,117,539 (-)NCBICelera
Cytogenetic Map10C1NCBI
Sbno2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554956,729,205 - 6,772,180 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554956,709,190 - 6,770,816 (+)NCBIChiLan1.0ChiLan1.0
SBNO2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1191,086,385 - 1,161,261 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl191,086,968 - 1,136,272 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0193,032 - 20,063 (+)NCBIMhudiblu_PPA_v0panPan3
SBNO2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12057,592,901 - 57,640,047 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2057,267,724 - 57,640,750 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2057,395,483 - 57,442,346 (+)NCBI
ROS_Cfam_1.02058,337,100 - 58,381,683 (+)NCBI
UMICH_Zoey_3.12057,392,724 - 57,437,602 (+)NCBI
UNSW_CanFamBas_1.02057,870,302 - 57,917,096 (+)NCBI
UU_Cfam_GSD_1.02058,073,231 - 58,120,125 (+)NCBI
Sbno2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118217,279,177 - 217,325,535 (+)NCBI
SpeTri2.0NW_004936588509,244 - 556,424 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SBNO2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl277,275,013 - 77,320,367 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1277,278,059 - 77,320,371 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2277,677,279 - 77,693,056 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SBNO2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.16877,066 - 950,663 (-)NCBI
ChlSab1.1 Ensembl6877,049 - 931,433 (-)Ensembl
Sbno2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248287,479,695 - 7,532,961 (+)NCBI

Position Markers
D7Rat156  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0712,482,847 - 12,483,086NCBIRnor6.0
Rnor_5.0712,652,950 - 12,653,189UniSTSRnor5.0
RGSC_v3.4711,128,857 - 11,129,097RGDRGSC3.4
RGSC_v3.4711,128,858 - 11,129,097UniSTSRGSC3.4
RGSC_v3.1711,128,822 - 11,129,117RGD
Celera77,792,553 - 7,792,792UniSTS
FHH x ACI MapX16.76UniSTS
FHH x ACI MapX16.76RGD
Cytogenetic Map7q11UniSTS
BE100284  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0712,495,279 - 12,495,428NCBIRnor6.0
Rnor_5.0712,665,382 - 12,665,531UniSTSRnor5.0
RGSC_v3.4711,141,290 - 11,141,439UniSTSRGSC3.4
Celera77,804,985 - 7,805,134UniSTS
RH 3.4 Map741.5UniSTS
Cytogenetic Map7q11UniSTS
MARC_21175-21176:1027090938:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0712,506,786 - 12,507,600NCBIRnor6.0
Rnor_5.0712,676,889 - 12,677,703UniSTSRnor5.0
RGSC_v3.4711,152,905 - 11,153,719UniSTSRGSC3.4
Celera77,816,447 - 7,817,261UniSTS
Cytogenetic Map7q11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7134147172Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7134828535Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7134828535Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7137009673Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7138119654Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)7265313832258115Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)72920071124838025Rat
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7591147750911477Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7595196950951969Rat
10755438Coatc9Coat color QTL 90coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7975804554758045Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)71164710256647102Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)71232846767193263Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)712328467106995532Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:222
Count of miRNA genes:150
Interacting mature miRNAs:168
Transcripts:ENSRNOT00000068197
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 1 18 3 17 3 23 17 28 11
Low 42 39 38 2 38 8 11 51 18 13 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000068197   ⟹   ENSRNOP00000062533
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl712,471,824 - 12,515,699 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000077146   ⟹   ENSRNOP00000071247
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl712,487,361 - 12,518,654 (+)Ensembl
RefSeq Acc Id: NM_001108068   ⟹   NP_001101538
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.279,605,627 - 9,649,527 (+)NCBI
Rnor_6.0712,471,824 - 12,515,699 (+)NCBI
Rnor_5.0712,641,918 - 12,685,803 (+)NCBI
RGSC_v3.4711,117,835 - 11,161,863 (+)RGD
Celera77,781,528 - 7,825,383 (+)RGD
Sequence:
RefSeq Acc Id: XM_006240908   ⟹   XP_006240970
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.279,605,790 - 9,649,529 (+)NCBI
Rnor_6.0712,471,925 - 12,515,700 (+)NCBI
Rnor_5.0712,641,918 - 12,685,803 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006240909   ⟹   XP_006240971
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0712,490,993 - 12,515,700 (+)NCBI
Rnor_5.0712,641,918 - 12,685,803 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008765095   ⟹   XP_008763317
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.279,624,902 - 9,649,529 (+)NCBI
Rnor_6.0712,491,691 - 12,515,700 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017594814   ⟹   XP_017450303
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.279,605,572 - 9,649,529 (+)NCBI
Rnor_6.0712,471,805 - 12,515,700 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039078981   ⟹   XP_038934909
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.279,621,218 - 9,649,529 (+)NCBI
RefSeq Acc Id: XM_039078982   ⟹   XP_038934910
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.279,631,161 - 9,649,529 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001101538   ⟸   NM_001108068
- UniProtKB: D3ZDU8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006240970   ⟸   XM_006240908
- Peptide Label: isoform X1
- UniProtKB: A0A0G2JZZ8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006240971   ⟸   XM_006240909
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008763317   ⟸   XM_008765095
- Peptide Label: isoform X3
- UniProtKB: D3ZDU8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017450303   ⟸   XM_017594814
- Peptide Label: isoform X1
- UniProtKB: A0A0G2JZZ8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000071247   ⟸   ENSRNOT00000077146
RefSeq Acc Id: ENSRNOP00000062533   ⟸   ENSRNOT00000068197
RefSeq Acc Id: XP_038934909   ⟸   XM_039078981
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038934910   ⟸   XM_039078982
- Peptide Label: isoform X4
Protein Domains
AAA_34   Helicase_C_4

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13695036
Promoter ID:EPDNEW_R5560
Type:initiation region
Name:Sbno2_1
Description:strawberry notch homolog 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0712,471,829 - 12,471,889EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
7 12679011 12679012 T G snv SR/JrHsd (MCW), FHH/EurMcwi (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307194 AgrOrtholog
Ensembl Genes ENSRNOG00000013987 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000062533 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000071247 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000068197 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000077146 UniProtKB/TrEMBL
InterPro P-loop_NTPase UniProtKB/TrEMBL
  SBNO2 UniProtKB/TrEMBL
  SBNO_Helicase_C_dom UniProtKB/TrEMBL
  SNO-like UniProtKB/TrEMBL
  SNO_AAA UniProtKB/TrEMBL
KEGG Report rno:314619 UniProtKB/TrEMBL
NCBI Gene 314619 ENTREZGENE
PANTHER PTHR12706 UniProtKB/TrEMBL
  PTHR12706:SF5 UniProtKB/TrEMBL
Pfam AAA_34 UniProtKB/TrEMBL
  Helicase_C_4 UniProtKB/TrEMBL
PhenoGen Sbno2 PhenoGen
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt A0A0G2JZZ8 ENTREZGENE, UniProtKB/TrEMBL
  D3ZDU8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-07-21 Sbno2  strawberry notch homolog 2  Sbno2  strawberry notch homolog 2 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Sbno2  strawberry notch homolog 2 (Drosophila)  Stno_predicted  strawberry notch homolog (Drosophila) (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Stno_predicted  strawberry notch homolog (Drosophila) (predicted)  RGD1307194_predicted  similar to KIAA0963 protein (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-20 RGD1307194_predicted  similar to KIAA0963 protein (predicted)  LOC314619_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC314619_predicted  similar to KIAA0963 protein (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL